Gene expression data
Bgee is a database to retrieve and compare gene expression patterns in multiple animal species, produced from multiple data types (RNA-Seq, Affymetrix, in situ hybridization, and EST data).
Simply normal
Bgee is based exclusively on curated "normal", healthy, expression data (e.g., no gene knock-out, no treatment, no disease), to provide a comparable reference of normal gene expression.
Comparable between species
Bgee produces calls of presence/absence of expression, and of differential over-/under-expression, integrated along with information of gene orthology, and of homology between organs. This allows comparisons of expression patterns between species.
H. sapiens
human
M. musculus
mouse
D. rerio
zebrafish
D. melanogaster
fruit fly
C. elegans
nematode
P. paniscus
bonobo
P. troglodytes
chimpanzee
G. gorilla
gorilla
M. mulatta
macaque
R. norvegicus
rat
B. taurus
cattle
S. scrofa
pig
M. domestica
opossum
O. anatinus
platypus
G. gallus
chicken
A. carolinensis
green anole
X. tropicalis
western clawed frog
- Major update of our gene page and ranking algorithm:
- We are happy to announce that we have updated our ranking algorithm allowing to discover the most relevant anatomical entities and life stages where a gene is expressed. We hope that you will appreciate the noticeable improvements.
- The gene page has been updated to display the rank scores of conditions where a gene is expressed, allowing to easily identify major functional shifts in gene expression.
- We now display more information about the sources of data used in Bgee, see the new data source page, and new information added to the gene pages.
- Update of the website interfaces.
- New download page providing processed expression values.
- Addition of mouse in situ data from MGI, see mouse data.
- Differential expression data have been added for zebrafish, chimpanzee, gorilla, and opossum.
- Addition of new multi-species differential expression data, see for instance chimpanzee/macaque comparison.
- New format to provide gene orthology information in multi-species files, see for instance OMA Hierarchical orthologous groups documentation.
- Removal of data incorrectly considered as normal in C. elegans, see worm data.
- Improved filtering of propagated no-expression calls. As a result, complete expression calls files do not contain invalid conditions anymore.
- Filtering of invalid developmental stages for differential expression analyses.
Images from Wikimedia Commons. In most cases, pictures corresponds to the sequenced strains. Show information about original images.
Homo sapiens picture by Leonardo da Vinci (Life time: 1519) [Public domain]. See H. sapiens picture via Wikimedia Commons
Mus musculus picture by Rasbak [GFDL or CC-BY-SA-3.0], See M. musculus picture via Wikimedia Commons
Danio rerio picture by Azul (Own work) [see page for license], See D. rerio picture via Wikimedia Commons
Drosophila melanogaster picture by André Karwath aka Aka (Own work) [CC-BY-SA-2.5], See D. melanogaster picture via Wikimedia Commons
Caenorhabditis elegans picture by Bob Goldstein, UNC Chapel Hill http://bio.unc.edu/people/faculty/goldstein/ (Own work) [CC-BY-SA-3.0], See C. elegans picture via Wikimedia Commons
Pan paniscus picture by Ltshears (Own work) [CC-BY-SA-3.0 or GFDL], See P. paniscus picture via Wikimedia Commons
Pan troglodytes picture by Thomas Lersch (Own work) [GFDL, CC-BY-SA-3.0 or CC-BY-2.5], See P. troglodytes picture via Wikimedia Commons
Gorilla gorilla picture by Brocken Inaglory (Own work) [CC-BY-SA-3.0 or GFDL], See G. gorilla picture via Wikimedia Commons
Pongo pygmaeus picture by Greg Hume (Own work) [CC-BY-SA-3.0], See P. pygmaeus picture via Wikimedia Commons
Macaca mulatta picture by Aiwok (Own work) [GFDL or CC-BY-SA-3.0-2.5-2.0-1.0], See M. mulatta picture via Wikimedia Commons
Rattus norvegicus picture by Reg Mckenna (originally posted to Flickr as Wild Rat) [CC-BY-2.0], See R. norvegicus picture via Wikimedia Commons
Bos taurus picture by User Robert Merkel on en.wikipedia (US Department of Agriculture) [Public domain], See B. taurus picture via Wikimedia Commons
Sus scrofa picture by Joshua Lutz (Own work) [Public domain], See S. scrofa picture via Wikimedia Commons
Monodelphis domestica picture by Marsupial Genome Sheds Light on the Evolution of Immunity. Hill E, PLoS Biology Vol. 4/3/2006, e75 http://dx.doi.org/10.1371/journal.pbio.0040075 [CC-BY-2.5], See M. domestica picture via Wikimedia Commons
Ornithorhynchus anatinus picture by Dr. Philip Bethge (private) [GFDL or CC-BY-SA-3.0-2.5-2.0-1.0], See O. anatinus picture via Wikimedia Commons
Gallus gallus picture by Subramanya C K (Own work) [CC-BY-SA-3.0], See G. gallus picture via Wikimedia Commons
Anolis carolinensis picture by PiccoloNamek (Moved from Image:P1010027.jpg) [GFDL or CC-BY-SA-3.0], See A. carolinensis picture via Wikimedia Commons
Xenopus tropicalis picture by Václav Gvoždík (http://calphotos.berkeley.edu) [CC-BY-SA-2.5, CC-BY-SA-2.5 or CC-BY-SA-3.0], See X. tropicalis picture via Wikimedia Commons
Tetraodon nigroviridis picture by Starseed (Own work) [CC-BY-SA-3.0-de or CC-BY-SA-3.0], See T. nigroviridis picture via Wikimedia Commons